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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45]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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.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' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ), 'gf_id' => 'HOM05D001057', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001057' ), 'data_identifier' => 'HOM05D001057', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001057', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24270' => 'bna', 'A03p31910' => 'bna', 'A04p34650' => 'bna', 'A05p00980' => 'bna', 'A06p01970' => 'bna', 'A08p23080' => 'bna', 'A09p00150' => 'bna', 'Aa31LG10G2690' => 'aar', 'Aa31LG1G28190' => 'aar', 'Aa31LG5G810' => 'aar', 'Aa31LG6G15070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2362' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1589' => 'aag', 'Actinidia02809' => 'ach', 'Actinidia06527' => 'ach', 'Actinidia10097' => 'ach', 'Actinidia20189' => 'ach', 'Actinidia21683' => 'ach', 'Actinidia25318' => 'ach', 'Actinidia28081' => 'ach', 'Actinidia28509' => 'ach', 'Actinidia32728' => 'ach', 'Actinidia34178' => 'ach', 'Ah.05g178890' => 'amhyb', 'Ah.05g179950' => 'amhyb', 'AL1G60390' => 'aly', 'AL4G46290' => 'aly', 'AL5G20600' => 'aly', 'AL6G52210' => 'aly', 'AL7G12480' => 'aly', 'Aqoxy5G04348' => 'aox', 'Aqoxy6G01460' => 'aox', 'Aqoxy7G00208' => 'aox', 'Aqoxy7G03826' => 'aox', 'arahy.Tifrunner.gnm1.ann1.16X2PZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1X5T6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.246C9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5DA507' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5LR307' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KHD191' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2XBQ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4UE4C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PD2L2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UG1GNN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X03RQ8' => 'arhy', 'AT1G52220' => 'ath', 'AT2G46820' => 'ath', 'AT4G01150' => 'ath', 'AT4G38100' => 'ath', 'ATR0021G027' => 'atr', 'ATR0022G048' => 'atr', 'ATR0661G555' => 'atr', 'ATR0782G241' => 'atr', 'Atru.chr1.3339' => 'acertr', 'Atru.chr3.1294' => 'acertr', 'Atru.chr5.609' => 'acertr', 'Atru.chr5.776' => 'acertr', 'AUR62003287' => 'cqu', 'AUR62004439' => 'cqu', 'AUR62011665' => 'cqu', 'AUR62016487' => 'cqu', 'AUR62023509' => 'cqu', 'AUR62027178' => 'cqu', 'BcaB01g02332' => 'bca', 'BcaB03g12306' => 'bca', 'BcaB05g23962' => 'bca', 'BcaC01g00347' => 'bca', 'BcaC01g06848' => 'bca', 'BcaC02g07001' => 'bca', 'BcaC03g16061' => 'bca', 'BcaC04g24129' => 'bca', 'BcaC08g43378' => 'bca', 'BcaNung03900' => 'bca', 'BolC2t09842H' => 'bol', 'BolC3t16165H' => 'bol', 'BolC3t20119H' => 'bol', 'BolC4t21765H' => 'bol', 'BolC4t28733H' => 'bol', 'BolC6t35834H' => 'bol', 'BolC9t53012H' => 'bol', 'BraA02t07417Z' => 'bra', 'BraA03t12363Z' => 'bra', 'BraA04t18923Z' => 'bra', 'BraA05t19098Z' => 'bra', 'BraA06t23413Z' => 'bra', 'BraA08t34267Z' => 'bra', 'BraA09t35743Z' => 'bra', 'C02p38270' => 'bna', 'C03p38930' => 'bna', 'C03p78750' => 'bna', 'C04p01120' => 'bna', 'C06p07450' => 'bna', 'C09p00780' => 'bna', 'CAN.G108.7' => 'can', 'CAN.G1150.7' => 'can', 'CAN.G1152.7' => 'can', 'CAN.G1388.9' => 'can', 'CAN.G292.14' => 'can', 'CAN.G78.155' => 'can', 'CANSAT01G2882' => 'cansat', 'CANSAT56G2785' => 'cansat', 'CANSAT56G3631' => 'cansat', 'CARHR042350' => 'chi', 'CARHR142160' => 'chi', 'CARHR246500' => 'chi', 'CARHR249130' => 'chi', 'Carub.0001s4119' => 'cru', 'Carub.0004s2953' => 'cru', 'Carub.0006s3621' => 'cru', 'Carub.0007s0211' => 'cru', 'Ca_04539_v3' => 'car', 'Ca_09486_v3' => 'car', 'Ca_09551_v3' => 'car', 'Ca_20372_v3' => 'car', 'Ca_23490_v3' => 'car', 'CBR_g3547' => 'cbr', 'CBR_g3552' => 'cbr', 'CBR_g3554' => 'cbr', 'Cc02_g38860' => 'ccan', 'Cc02_g39980' => 'ccan', 'Cc04_g03020' => 'ccan', 'Cc07_g14280' => 'ccan', 'CDE03G0250' => 'cde', 'CDE04G3443' => 'cde', 'CDE05G0708' => 'cde', 'CDE05G2147' => 'cde', 'CDE05G2630' => 'cde', 'CDE06G0293' => 'cde', 'CDE11G0655' => 'cde', 'CDE12G0936' => 'cde', 'Cfa003728' => 'cfa', 'Cfa003843' => 'cfa', 'Cfa004354' => 'cfa', 'Ciclev10022116m.g' => 'ccl', 'Ciclev10022571m.g' => 'ccl', 'Ciclev10026488m.g' => 'ccl', 'Ciclev10026714m.g' => 'ccl', 'CiPaw.01G070700' => 'cil', 'CiPaw.01G083600' => 'cil', 'CiPaw.01G235500' => 'cil', 'CiPaw.02G021300' => 'cil', 'CiPaw.02G037900' => 'cil', 'CiPaw.06G000800' => 'cil', 'ClCG05G001020' => 'cla', 'ClCG06G002300' => 'cla', 'ClCG10G008710' => 'cla', 'COL.COLO4_06345' => 'col', 'COL.COLO4_23055' => 'col', 'COL.COLO4_27341' => 'col', 'COL.COLO4_30438' => 'col', 'Cpa.g.sc184.3' => 'cpa', 'Cpa.g.sc55.37' => 'cpa', 'Cpa.g.sc57.84' => 'cpa', 'Cre05.g233950' => 'cre', 'Cre13.g603450' => 'cre', 'CsaV3_3G008350' => 'csa', 'CsaV3_4G008970' => 'csa', 'CsaV3_6G008350' => 'csa', 'CsaV3_7G033430' => 'csa', 'CSS0002984' => 'camsi', 'CSS0007900' => 'camsi', 'CSS0009229' => 'camsi', 'CSS0033442' => 'camsi', 'CSS0034605' => 'camsi', 'CSS0036629' => 'camsi', 'CSS0041752' => 'camsi', 'CSS0043485' => 'camsi', 'DCAR_002975' => 'dca', 'DCAR_006959' => 'dca', 'DCAR_008646' => 'dca', 'DCAR_025237' => 'dca', 'Dinv04819' => 'din', 'Dinv13622' => 'din', 'Dinv28353' => 'din', 'Dinv30479' => 'din', 'Dinv32545' => 'din', 'Dinv32650' => 'din', 'Dinv34260' => 'din', 'Dinv38018' => 'din', 'Dinv43886' => 'din', 'Duzib133G0178' => 'dzi', 'Duzib133G1558' => 'dzi', 'Duzib138G0635' => 'dzi', 'Duzib138G1455' => 'dzi', 'Duzib147G1651' => 'dzi', 'Duzib192G0225' => 'dzi', 'Duzib268G1335' => 'dzi', 'ECA232G2088' => 'eca', 'ECA234G4582' => 'eca', 'ECA236G1767' => 'eca', 'ECA236G4382' => 'eca', 'ECA238G3689' => 'eca', 'EL10Ac1g00180' => 'bvu', 'EL10Ac1g00323' => 'bvu', 'EL10Ac6g14789' => 'bvu', 'EL10Ac9g22033' => 'bvu', 'Eucgr.D02339' => 'egr', 'Eucgr.E00015' => 'egr', 'Eucgr.I00554' => 'egr', 'Eucgr.J02957' => 'egr', 'Eucgr.K00314' => 'egr', 'FAN01G0808' => 'fan', 'FAN01G2307' => 'fan', 'FAN03G1202' => 'fan', 'FAN03G1724' => 'fan', 'FAN04G2611' => 'fan', 'FAN06G1189' => 'fan', 'FAN06G2322' => 'fan', 'FAN06G3193' => 'fan', 'FAN06G4190' => 'fan', 'FAN08G3370' => 'fan', 'FAN10G1074' => 'fan', 'FAN10G3351' => 'fan', 'FAN10G4297' => 'fan', 'FAN10G4363' => 'fan', 'FAN13G0902' => 'fan', 'FAN18G3220' => 'fan', 'FAN19G0601' => 'fan', 'FAN23G1800' => 'fan', 'FAN26G0905' => 'fan', 'FAN28G0355' => 'fan', 'FvH4_1g19890' => 'fve', 'FvH4_5g26750' => 'fve', 'FvH4_7g15760' => 'fve', 'FvH4_7g17800' => 'fve', 'Glyma.01G024600' => 'gma', 'Glyma.02G040600' => 'gma', 'Glyma.03G261500' => 'gma', 'Glyma.07G019400' => 'gma', 'Glyma.07G049000' => 'gma', 'Glyma.07G060700' => 'gma', 'Glyma.08G204600' => 'gma', 'Glyma.16G017600' => 'gma', 'Glyma.16G029300' => 'gma', 'Glyma.19G260600' => 'gma', 'Gohir.A02G131000' => 'ghi', 'Gohir.A07G140000' => 'ghi', 'Gohir.A08G126300' => 'ghi', 'Gohir.A10G081400' => 'ghi', 'Gohir.A10G087800' => 'ghi', 'Gohir.A11G093700' => 'ghi', 'Gohir.A11G101600' => 'ghi', 'Gohir.D07G145100' => 'ghi', 'Gohir.D08G147800' => 'ghi', 'Gohir.D10G070000' => 'ghi', 'Gohir.D10G100300' => 'ghi', 'Gohir.D11G098700' => 'ghi', 'Gohir.D11G106100' => 'ghi', 'Gorai.001G157000' => 'gra', 'Gorai.003G042900' => 'gra', 'Gorai.004G153300' => 'gra', 'Gorai.007G104900' => 'gra', 'Gorai.007G113600' => 'gra', 'Gorai.011G074300' => 'gra', 'Gorai.011G110000' => 'gra', 'GSVIVG01003601001' => 'vvi', 'GSVIVG01003604001' => 'vvi', 'GSVIVG01017074001' => 'vvi', 'GSVIVG01027036001' => 'vvi', 'GSVIVG01027447001' => 'vvi', 'GSVIVG01028749001' => 'vvi', 'HanXRQChr04g0096171' => 'han', 'HanXRQChr04g0119751' => 'han', 'HanXRQChr04g0120621' => 'han', 'HanXRQChr06g0170491' => 'han', 'HanXRQChr06g0183421' => 'han', 'HanXRQChr09g0253121' => 'han', 'HanXRQChr14g0442601' => 'han', 'HanXRQChr14g0442631' => 'han', 'HanXRQChr17g0561111' => 'han', 'HanXRQChr17g0561121' => 'han', 'Haze_15054' => 'cav', 'Haze_15608' => 'cav', 'Haze_15741' => 'cav', 'Haze_16358' => 'cav', 'Hma1.2p1_0074F.1_g038805' => 'hma', 'Hma1.2p1_0142F.1_g064150' => 'hma', 'Hma1.2p1_0397F.1_g143780' => 'hma', 'Hma1.2p1_3000F.1_g331520' => 'hma', 'HPP92_016754' => 'vpl', 'HPP92_022255' => 'vpl', 'HPP92_022258' => 'vpl', 'HPP92_022265' => 'vpl', 'HPP92_024335' => 'vpl', 'Hund00767' => 'sun', 'Hund06631' => 'sun', 'Hund14094' => 'sun', 'Hund16542' => 'sun', 'Hund16690' => 'sun', 'Hund16756' => 'sun', 'Hund27227' => 'sun', 'Lalb_Chr04g0254131' => 'lal', 'Lalb_Chr04g0261671' => 'lal', 'Lalb_Chr10g0100141' => 'lal', 'Lalb_Chr16g0381771' => 'lal', 'Lalb_Chr17g0342221' => 'lal', 'Lalb_Chr18g0044731' => 'lal', 'Lalb_Chr25g0279981' => 'lal', 'Lj1g0018635' => 'lja', 'Lj2g0001193' => 'lja', 'Lj3g0001792' => 'lja', 'Lj3g0027497' => 'lja', 'Lj3g0027589' => 'lja', 'Lj4A271T36' => 'lonja', 'Lj7A504T52' => 'lonja', 'Lj9C593T3' => 'lonja', 'Lsat_1_v5_gn_0_22321' => 'lsa', 'Lsat_1_v5_gn_1_35260' => 'lsa', 'Lsat_1_v5_gn_3_139841' => 'lsa', 'Lsat_1_v5_gn_3_139861' => 'lsa', 'Lsat_1_v5_gn_4_33541' => 'lsa', 'Lsat_1_v5_gn_7_115161' => 'lsa', 'Lsat_1_v5_gn_9_57221' => 'lsa', 'Manes.01G239100' => 'mes', 'Manes.01G250100' => 'mes', 'Manes.05G015700' => 'mes', 'Manes.05G026900' => 'mes', 'Manes.11G037700' => 'mes', 'Manes.12G127700' => 'mes', 'Manes.13G099300' => 'mes', 'Mapoly0002s0304' => 'mpo', 'Mapoly0091s0069' => 'mpo', 'Mapoly0091s0076' => 'mpo', 'MBI02_g18282_MAGBIO' => 'mbi', 'MBI04_g09597_MAGBIO' => 'mbi', 'MBI12_g20607_MAGBIO' => 'mbi', 'MBI12_g34568_MAGBIO' => 'mbi', 'MBI13_g40118_MAGBIO' => 'mbi', 'MCO01G573' => 'mco', 'MCO14G495' => 'mco', 'MD01G1074400' => 'mdo', 'MD01G1089400' => 'mdo', 'MD07G1143300' => 'mdo', 'MD07G1160900' => 'mdo', 'MD09G1209100' => 'mdo', 'MD15G1315100' => 'mdo', 'Medtr4g013200' => 'mtr', 'Medtr5g032440' => 'mtr', 'Medtr7g116795' => 'mtr', 'Medtr7g118290' => 'mtr', 'Medtr8g024180' => 'mtr', 'MELO3C006053.2' => 'cme', 'MELO3C018978.2' => 'cme', 'MELO3C022303.2' => 'cme', 'MELO3C024257.2' => 'cme', 'Migut.B01824' => 'egut', 'Migut.B01923' => 'egut', 'Migut.D01016' => 'egut', 'Migut.H02308' => 'egut', 'Migut.N01569' => 'egut', 'MSTRG.17313' => 'ama', 'MSTRG.17384' => 'ama', 'MSTRG.20882' => 'ama', 'MSTRG.2594' => 'ama', 'MSTRG.3744' => 'ama', 'MSTRG.4739' => 'ama', 'MSTRG.4823' => 'ama', 'Nitab4.5_0000305g0210' => 'nta', 'Nitab4.5_0000351g0110' => 'nta', 'Nitab4.5_0001468g0020' => 'nta', 'Nitab4.5_0002053g0100' => 'nta', 'Nitab4.5_0002637g0060' => 'nta', 'Nitab4.5_0002892g0010' => 'nta', 'Nitab4.5_0003351g0010' => 'nta', 'Nitab4.5_0004613g0040' => 'nta', 'Nitab4.5_0006014g0040' => 'nta', 'Nitab4.5_0010196g0010' => 'nta', 'Nn1g00455' => 'nnu', 'Nn1g01772' => 'nnu', 'Nn1g05516' => 'nnu', 'Nn2g11683' => 'nnu', 'Nn3g18086' => 'nnu', 'Nn4g24706' => 'nnu', 'Nn5g29931' => 'nnu', 'Nn7g37362' => 'nnu', 'Oeu002147.1' => 'oeu', 'Oeu007836.2' => 'oeu', 'Oeu022851.1' => 'oeu', 'Oeu036577.1' => 'oeu', 'Oeu053586.1' => 'oeu', 'Oeu064416.2' => 'oeu', 'Os01g0761000' => 'osa', 'Os02g0548900' => 'osa', 'Os02g0731600' => 'osa', 'Os02g0759900' => 'osa', 'Os06g0217700' => 'osa', 'Os06g0295700' => 'osa', 'Os07g0469100' => 'osa', 'Os08g0430600' => 'osa', 'Os09g0250300' => 'osa', 'Os09g0465800' => 'osa', 'Os10g0536500' => 'osa', 'Peaxi162Scf00207g00944' => 'pax', 'Peaxi162Scf00313g00019' => 'pax', 'Peaxi162Scf00447g00215' => 'pax', 'Peaxi162Scf00585g01020' => 'pax', 'Peaxi162Scf01012g00229' => 'pax', 'PGR031G1933' => 'pgr', 'PGR031G3534' => 'pgr', 'PGR042G1617' => 'pgr', 'PGR102G2468' => 'pgr', 'PGR142G0880' => 'pgr', 'PGSC0003DMG400000204' => 'stu', 'PGSC0003DMG400006592' => 'stu', 'PGSC0003DMG400011295' => 'stu', 'PGSC0003DMG400016207' => 'stu', 'PGSC0003DMG400016532' => 'stu', 'Phvul.002G148500' => 'pvu', 'Phvul.009G258500' => 'pvu', 'Phvul.010G108500' => 'pvu', 'Phvul.010G120100' => 'pvu', 'Phvul.010G148600' => 'pvu', 'Potri.001G184700' => 'ptr', 'Potri.002G166800' => 'ptr', 'Potri.002G180400' => 'ptr', 'Potri.003G052200' => 'ptr', 'Potri.005G147801' => 'ptr', 'Potri.014G093900' => 'ptr', 'Potri.014G106400' => 'ptr', 'Pp3c16_11960' => 'ppa', 'Pp3c17_14680' => 'ppa', 'Pp3c17_14681' => 'ppa', 'Pp3c20_4990' => 'ppa', 'Pp3c23_20770' => 'ppa', 'Pp3c27_4510' => 'ppa', 'Pp3c8_17810' => 'ppa', 'PRCOL_00001852' => 'pco', 'Prupe.2G182400' => 'ppe', 'Prupe.2G198900' => 'ppe', 'Prupe.3G066500' => 'ppe', 'Prupe.6G196600' => 'ppe', 'Psat0s1479g0120' => 'psa', 'Psat0s1908g0040' => 'psa', 'Psat0s3211g0080' => 'psa', 'Psat2g082560' => 'psa', 'Psat7g250040' => 'psa', 'PSO063G4719' => 'pso', 'PSO063G7074' => 'pso', 'PSO135G0124' => 'pso', 'PSO170G6029' => 'pso', 'PSO210G1716' => 'pso', 'PSO210G6925' => 'pso', 'PSO384G4006' => 'pso', 'PSO541G5139' => 'pso', 'PSO675G4570' => 'pso', 'PSO782G3349' => 'pso', 'QL05p021627' => 'qlo', 'QL06p047483' => 'qlo', 'QL08p047468' => 'qlo', 'QL10p011694' => 'qlo', 'RcHm_v2.0_Chr1g0358531' => 'rch', 'RcHm_v2.0_Chr1g0361201' => 'rch', 'RcHm_v2.0_Chr2g0111711' => 'rch', 'RcHm_v2.0_Chr5g0044891' => 'rch', 'RcHm_v2.0_Chr7g0217621' => 'rch', 'Rhsim01G0181300' => 'rsi', 'Rhsim03G0197000' => 'rsi', 'Rhsim07G0007900' => 'rsi', 'Rhsim08G0014900' => 'rsi', 'Rhsim08G0223600' => 'rsi', 'Rhsim10G0171800' => 'rsi', 'Sabra02G0133800' => 'sbr', 'Sabra02G0144800' => 'sbr', 'Sabra05G0117800' => 'sbr', 'Sabra14G0068500' => 'sbr', 'Sabra14G0078600' => 'sbr', 'SalBow3G2037' => 'sbo', 'SalBow3G4067' => 'sbo', 'SalBow3G4093' => 'sbo', 'SalBow3G4294' => 'sbo', 'SalBow5G0921' => 'sbo', 'SalBow5G5321' => 'sbo', 'Sc15g0001360' => 'sci', 'Sc16g0000460' => 'sci', 'Sc23g0001770' => 'sci', 'Sc23g0002380' => 'sci', 'Sed0011200' => 'sed', 'Sed0012005' => 'sed', 'Sed0016154' => 'sed', 'Sed0022313' => 'sed', 'Sed0022536' => 'sed', 'Sed0023081' => 'sed', 'Sed0023899' => 'sed', 'SEGI_00717' => 'sgi', 'SEGI_03864' => 'sgi', 'SEGI_09828' => 'sgi', 'SEGI_16348' => 'sgi', 'SEGI_17981' => 'sgi', 'SEGI_18022' => 'sgi', 'SEGI_19315' => 'sgi', 'SEGI_19441' => 'sgi', 'SGA_v2.0_scaffold108G30907' => 'sas', 'SGA_v2.0_scaffold195G40840' => 'sas', 'SGA_v2.0_scaffold43G16381' => 'sas', 'SGA_v2.0_scaffold4G02262' => 'sas', 'SGA_v2.0_scaffold68G22981' => 'sas', 'SGA_v2.0_scaffold95G28796' => 'sas', 'SMO275G0067' => 'smo', 'Solyc01g056890.1' => 'sly', 'Solyc01g056900.1' => 'sly', 'Solyc01g095430.3' => 'sly', 'Solyc03g007830.3' => 'sly', 'Solyc06g066620.4' => 'sly', 'Solyc10g005050.3' => 'sly', 'Solyc10g011770.4' => 'sly', 'Solyc11g010480.2' => 'sly', 'Sopen01g039180' => 'spe', 'Sopen03g003760' => 'spe', 'Sopen06g024890' => 'spe', 'Sopen10g001080' => 'spe', 'Sopen10g005560' => 'spe', 'Sopen11g005260' => 'spe', 'Sp1g38760' => 'spa', 'Sp4g28850' => 'spa', 'Sp6g00960' => 'spa', 'Sp7g35730' => 'spa', 'TAR381G1324' => 'tar', 'TAR381G1737' => 'tar', 'TAR624G0186' => 'tar', 'TAR625G0386' => 'tar', 'TAR628G0572' => 'tar', 'TAR629G0296' => 'tar', 'TAR629G3066' => 'tar', 'TAR636G1813' => 'tar', 'TAR636G2945' => 'tar', 'THA.LOC104802098' => 'tha', 'THA.LOC104804169' => 'tha', 'THA.LOC104817403' => 'tha', 'THA.LOC104817981' => 'tha', 'THA.LOC104824907' => 'tha', 'THA.LOC104825867' => 'tha', 'Thecc.01G092300' => 'tca', 'Thecc.01G332500' => 'tca', 'Thecc.01G348800' => 'tca', 'Thecc.06G092700' => 'tca', 'Thhalv10000365m.g' => 'esa', 'Thhalv10001663m.g' => 'esa', 'Thhalv10005327m.g' => 'esa', 'Thhalv10027947m.g' => 'esa', 'Thhalv10029019m.g' => 'esa', 'TPR.G29426' => 'tpr', 'TPR.G29986' => 'tpr', 'TPR.G4694' => 'tpr', 'TPR.G4758' => 'tpr', 'TPR.G5224' => 'tpr', 'TWI12G1124' => 'twi', 'TWI14G0688' => 'twi', 'TWI14G0693' => 'twi', 'TWI59G0208' => 'twi', 'TWI59G0709' => 'twi', 'TWI74G1478' => 'twi', 'TWI77G0595' => 'twi', 'unitig_52.g17062' => 'ugi', 'unitig_62.g23782' => 'ugi', 'unitig_62.g23801' => 'ugi', 'vmacro12636' => 'vma', 'vmacro12995' => 'vma', 'vmacro13204' => 'vma', 'vmacro18568' => 'vma', 'vmacro18886' => 'vma', 'VMungo0331G1033' => 'vmu', 'VMungo0331G1249' => 'vmu', 'VMungo0331G1955' => 'vmu', 'VMungo1215G2805' => 'vmu', 'VMungo1309G2068' => 'vmu', 'Zm00001eb001950' => 'zma', 'Zm00001eb022040' => 'zma', 'Zm00001eb041790' => 'zma', 'Zm00001eb101100' => 'zma', 'Zm00001eb152430' => 'zma', 'Zm00001eb190110' => 'zma', 'Zm00001eb193820' => 'zma', 'Zm00001eb255570' => 'zma', 'Zm00001eb280560' => 'zma', 'Zm00001eb320280' => 'zma', 'Zm00001eb370480' => 'zma' ) $gf_id = 'HOM05D001057' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001057' ) $data_identifier = 'HOM05D001057' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 20, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 7, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 2, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 10, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 11, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 8, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 8, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370480' $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